Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013298.1 Kokia drynarioides strain JFW-HI SEQ_128320, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 77148
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:373 original size:202 final size:199
Alignment explanation
Indices: 1--2528 Score: 1039
Period size: 216 Copynumber: 12.2 Consensus size: 199
* * * * *
1 TGTAAAAAACTTTTGGTCTTCGATTTAAAAAGTTATTTACGTGAGAATTGTTTCTCCCTTGGTTC
1 TGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT-CTTTGGTTC
* ** * * * *
66 TTGG-CTGAATTTCCAAACTAATCAAACTTTTACGAGTTCTTCTATAACATCGGTCCCTTAAAGC
65 TTGGAC-GAACTTCCAAACTTGTCAAACTTTTACGAGTTCTT-TATAACTTTGGTTCCTTAAAGT
** * *
130 ATTTTAGACGATCCATT-TTATCGAGCAATTTT-CAGAACATTCGCATAATTTGGTCCAAAATAG
128 ATTCAAGACGATCCATTCCT-TCAAGCAATTTTCCA-AACATTCGCATAATTTGGTCC-AAATAG
193 TTTGTCATTT
190 TTTGTCATTT
* * *
203 TGTAAACAACTTTCGGTCTTTGAATTAAAAACTTATTCACCTGAGAATTGTTTCTCTGTTGGTTC
1 TGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT-TTGGTTC
* * * *
268 TTAGACGAACTTCCGAACTTGTCAAACATTTACGAGTTCTTTGATAACTTTGAG-TCCTTAAATT
65 TTGGACGAACTTCCAAACTTGTCAAACTTTTACGAGTTCTTT-ATAACTTTG-GTTCCTTAAAGT
* * *
332 ATTCAATATGATCCATTCCTTCAAGAAATTTTCCAAACATTCCACGCTCGGGAAATCGCATCATT
128 ATTCAAGACGATCCATTCCTTCAAGCAATTTTCCAAACATT---CG--C-----AT---A--ATT
*
397 TGGTCCAAATAGTTTGACATTT
178 TGGTCCAAATAGTTTGTCATTT
* * ** *
419 AGTAAACAGCTTTTGGTCTTTG-ATATAAAAACTTATTTACGTGAGAATCATTTGTCTATTGGTT
1 TGTAAACAACTTTTGGTCTTTGAAT-TAAAAACTTATTTACGTGAGAATTGTTTCTCT-TTGGTT
* * * **
483 CTTGGCCGAAC-TCTCAAACTTGTTAAACTTTTACGAGTTAATTTATAACTTCAGTTCCTTAAAG
64 CTTGGACGAACTTC-CAAACTTGTCAAACTTTTACGAGTT-CTTTATAACTTTGGTTCCTTAAAG
* * * * * * * * *
547 TTTTCAAGATGATCCATTCCATCAAGCAATTTTCTAAACAATCACATCAGTTGGTTCAAATAGTT
127 TATTCAAGACGATCCATTCCTTCAAGCAATTTTCCAAACATTCGCATAATTTGGTCCAAATAGTT
* *
612 TTTAATTT
192 TGTCATTT
* * * *
620 TGTATACAACTGTTGGTCTTTGAATTAAGAACTTATTTACGTGAGAATTGTTTATCTTCTGGTTC
1 TGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTT-TGGTTC
** ** * * *
685 TTGGATTAACAACC--AGTTCT-AAACTTTTACGAGTTCTTTTATAACTTTGGTTTCTTAAAGTA
65 TTGGACGAACTTCCAAACTTGTCAAACTTTTACGAGTTC-TTTATAACTTTGGTTCCTTAAAGTA
* * *
747 TTCAAGACGATCCATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGGGGAATCGCATCATTT
129 TTCAAGACGATCCATTCCTTCAAGCAATTTTC-CAA-A---CA---T-------TCGCATAATTT
** *
812 GGTCCAAATAGTTTGTGGTTC
179 GGTCCAAATAGTTTGTCATTT
** * * * * *
833 TGTAAACAACTTTTGGTCTTTGAATTGGAAACTTATTTACGTGAGAATTGTTTGTTTATTTGCTA
1 TGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT-TTGGTTC
* ** * * * * * * * *
898 TTGGCCGAACTTCTGAACATGTAAAACTTTCA-AAATCTCTTTTATAAGTTCT-ATTCTTTAAAG
65 TTGGACGAACTTCCAAACTTGTCAAACTTTTACGAGT-TC-TTTATAACTT-TGGTTCCTTAAAG
** ** * *
961 TATTCTGGACGATCCATTCCTTCGTGTAATTATT-CGAACATTCCGTGCTCAGGAAATCGCATCA
127 TATTCAAGACGATCCATTCCTTCAAGCAATT-TTCCAAACATT-C--G--C-----AT---A--A
* * *
1025 TTTGGTCAAAAATAGTTTCTCATGT
176 TTTGGTC-CAAATAGTTTGTCATTT
* * * *
1050 TGTGACCAACTTTTGCTCTTTGAATT-AAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTC
1 TGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT-TTGGTTC
** *** **
1114 TTGGTTGAACTTTTGAACTTGTCAAACTAAACTTTTACGAGTTCTTATATAACTTCAGTTCCTTA
65 TTGGACGAACTTCCAAACTTGT----C-AAACTTTTACGAGTTCTT-TATAACTTTGGTTCCTTA
** * * * ** *
1179 AAGAAATATT-TTGAAC-ATTCCA-TGCTT--GGTATTATTTGGTCCAAATTGTTTCTCAT--TT
124 AAG---TATTCAAG-ACGA-TCCATTCCTTCAAGCA--ATTT--TCCAAA--CATTCGCATAATT
* *
1237 T-GT--AAACAACTTTTGGTC-TTT
178 TGGTCCAAA-TA-GTTT-GTCATTT
* * ** * * ** * *
1258 GAGTTAAA-AAC---T--TATTT-ACGTGAGAA-TT-TTT--G-GTCAATTG-GT-TCTTGGACG
1 -TG-TAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTTTG--G
** * * * * *
1309 AACTT--CCGAACTTGGCAAAC---T---A---TTACGAGTTCTTTTACAACTTCGCTTCCTTAA
62 TTCTTGGACGAACTT-CCAAACTTGTCAAACTTTTACGAGTTC-TTTATAACTTTGGTTCCTTAA
* * * *
1363 AGTA-TCGAGACGATCCATTCCTTCGAGCAATTTTCTGAACATTCCATGCCCGGGAAATCGCATC
125 AGTATTCAAGACGATCCATTCCTTCAAGCAATTTTC-CAA-A---CAT----------TCGCATA
* ** *
1427 TTTTGAACCATATAGTTTGTCATTT
175 ATTTGGTCCAAATAGTTTGTCATTT
* * * * *
1452 TGTAAAAAACCTTTGGTCTTTGAAATAAAAACTTATTTACGTGAGAATTGTTTGTCTATTTGTTC
1 TGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT-TTGGTTC
* * * * * *
1517 TTGGCCGAACTTCCCGAATTTGTCAAACTTTCACGATTTCTTT-TGCAACATCTT--TTCCATAA
65 TTGGACGAACTT-CCAAACTTGTCAAACTTTTACGAGTTCTTTAT--AAC-T-TTGGTTCCTTAA
* * * * *
1579 AGTATT-AGGACAATCCATTCCTTCATGCAATTTT-CAGAACATTTGCATAATTTGGTCCATATA
125 AGTATTCAAGACGATCCATTCCTTCAAGCAATTTTCCA-AACATTCGCATAATTTGGTCCAAATA
1642 GTTTGTCATTT
189 GTTTGTCATTT
* * *
1653 CGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTCAGAATTGTTTCTCTCTTTGTTC
1 TGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT-TTGGTTC
* * * ***
1718 TGGGATGAACTTCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAACATCAATTCCTTAAAGTA
65 TTGGACGAACTTCCAAACTTGTCAAACTTTTACGAGTTC-TTTATAACTTTGGTTCCTTAAAGTA
* * *** * * *
1783 TTCAAGACGGTCCATCCCTTTGGGCAATTTTCTAACCATTTGTTCAGGAAATCACATAATTTGGA
129 TTCAAGACGATCCATTCCTTCAAGCAATTTTCCAAACA----TTC--G------CATAATTTGGT
** *
1848 ATAAATAGTTTGCCATTT
182 CCAAATAGTTTGTCATTT
* * * *
1866 TGTAAACAACTTTTGGTCTTTGATTTAAAAAGTTAATTACGTGAGAATTGATTCTCTCTTGGTTC
1 TGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT-TTGGTTC
* * * * * *
1931 TTGGACTAACTTGCGAACTTGTCAAACTTGTATGAGTTCTTGAATAACTTTGGTTCCTTAAAGTA
65 TTGGACGAACTTCCAAACTTGTCAAACTTTTACGAGTTCTT-TATAACTTTGGTTCCTTAAAGTA
* * * * * *
1996 TTCAAGATGATCCATTCCATCGAGCAATTTTTTGAACTTTCAATGTTCGGGAAATCGCATCATTT
129 TTCAAGACGATCCATTCCTTCAAGCAA--TTTT---C---CAA---AC----ATTCGCATAATTT
* * *
2061 GGTCCAAATAATTTATTATTT
179 GGTCCAAATAGTTTGTCATTT
* *
2082 TGTAAACAACTTTTGGTCTTTGAATTAAAAATTTATTTACGT-AGAATTGTTTATCTCTTGGTTC
1 TGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT-TTGGTTC
* * *
2146 TTGGACG-------AAACTTGTCAAACTTTTACAAGCTCTTGAATAACTTTGGTTCCTTAAAGTA
65 TTGGACGAACTTCCAAACTTGTCAAACTTTTACGAGTTCTT-TATAACTTTGGTTCCTTAAAGTA
* * * * * * **
2204 TTCAAGACGGTCCATTCCTTCGAGTAATTTCCCGAACATTCCATGCTCGGGAAAGAGTATCATTT
129 TTCAAGACGATCCATTCCTTCAAGCAATTTTCC-AA-A---CAT--TC-GCATA-A-T-T--TGG
* *
2269 TGTCCAA-ACAGTTAT-TCATTT
181 T-CCAAATA--GTT-TGTCATTT
* * * * *
2290 TGTAAACAACTTTTGGTCTTTGATTTAAGAAGTTATTTACGCGAGAATTGTTTCTCCCTTGGTTC
1 TGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT-CTTTGGTTC
* * * * * * * * * *
2355 TTGGCCGAACTTTCAAATTTGTCAAACTTTTACGAGTTTTTCTATAGCATCGATCCCTTAAAGCA
65 TTGGACGAACTTCCAAACTTGTCAAACTTTTACGAGTTCTT-TATAACTTTGGTTCCTTAAAGTA
* *
2420 TTAAAGACGATCCATTCCTTCGAGCAATTTT-CAGAACATTCGCATAATTTGGTCCAAAATAGTT
129 TTCAAGACGATCCATTCCTTCAAGCAATTTTCCA-AACATTCGCATAATTTGGTCC-AAATAGTT
*
2484 TGTTATTT
192 TGTCATTT
2492 TGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATT
1 TGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATT
2529 CACCTCAGAA
Statistics
Matches: 1749, Mismatches: 361, Indels: 432
0.69 0.14 0.17
Matches are distributed among these distances:
178 2 0.00
179 9 0.01
180 13 0.01
181 2 0.00
182 2 0.00
183 28 0.02
184 2 0.00
186 1 0.00
191 5 0.00
192 4 0.00
193 10 0.01
194 7 0.00
195 1 0.00
196 11 0.01
197 6 0.00
198 76 0.04
199 17 0.01
200 46 0.03
201 212 0.12
202 185 0.11
203 18 0.01
204 16 0.01
205 10 0.01
206 17 0.01
207 19 0.01
208 123 0.07
209 35 0.02
210 7 0.00
211 11 0.01
212 4 0.00
213 241 0.14
214 6 0.00
215 48 0.03
216 431 0.25
217 53 0.03
218 2 0.00
220 2 0.00
221 31 0.02
222 5 0.00
223 10 0.01
224 14 0.01
225 3 0.00
226 1 0.00
227 2 0.00
228 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.40
Consensus pattern (199 bp):
TGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTTTGGTTCT
TGGACGAACTTCCAAACTTGTCAAACTTTTACGAGTTCTTTATAACTTTGGTTCCTTAAAGTATT
CAAGACGATCCATTCCTTCAAGCAATTTTCCAAACATTCGCATAATTTGGTCCAAATAGTTTGTC
ATTT
Found at i:812 original size:414 final size:417
Alignment explanation
Indices: 1--908 Score: 1059
Period size: 414 Copynumber: 2.2 Consensus size: 417
* * * * * **
1 TGTAAAAAACTTTTGGTCTTCGATTTAAAAAGTTATTTACGTGAGAATTGTTTCTCCCTTGGTTC
1 TGTAAACAACTTTTGGTCTTTGATATAAAAACTTATTTACGTGAGAATTGTTTGTCTATTGGTTC
* * * *
66 TTGGCTGAA-TTTCCAAACTAATCAAACTTTTACGAGTTCTTCTATAACATCGGTCCCTTAAAGC
66 TTGGCCGAACTCTCCAAACTAATCAAACTTTTACGAGTTATTCTATAACATCAGTCCCTTAAAG-
** * * * *
130 ATTTTAGACGATCCATTTTATCGAGCAATTTTCAGAACATTCGCATAATTTGGTCCAAAATAGTT
130 ATTTTAGACGATCCATTCCATCAAGCAATTTTCAGAACAATCACATAAGTTGGTCCAAAATAGTT
* *
195 TGTCATTTTGTAAACAACTTTCGGTCTTTGAATTAAAAACTTATTCACCTGAGAATTGTTTCTCT
195 TGTAATTTTGTAAACAACTTTCGGTCTTTGAATTAAAAACTTATTCACCTGAGAATTGTTTATCT
** *
260 GTTGGTTCTTAGACGAACTTCCGAACTTGTCAAACATTTACGAGTTCTTTGATAACTTTGAGTCC
260 GTTGGTTCTTAGACGAACAACC-AACTTCTCAAACATTTACGAGTTCTTTGATAACTTTGAGTCC
* * *
325 TTAAATTATTCAATATGATCCATTCCTTCAAGAAATTTTCCAAACATTCCACGCTCGGGAAATCG
324 TTAAAGTATTCAAGACGATCCATTCCTTCAAGAAATTTTCCAAACATTCCACGCTCGGGAAATCG
390 CATCATTTGGTCCAAATAGTTTGACATT-
389 CATCATTTGGTCCAAATAGTTTGACATTC
* **
418 TAGTAAACAGCTTTTGGTCTTTGATATAAAAACTTATTTACGTGAGAATCATTTGTCTATTGGTT
1 T-GTAAACAACTTTTGGTCTTTGATATAAAAACTTATTTACGTGAGAATTGTTTGTCTATTGGTT
** * * *
483 CTTGGCCGAACTCT-CAAACTTGTTAAACTTTTACGAGTTAATT-TATAACTTCAGTTCCTTAAA
65 CTTGGCCGAACTCTCCAAACTAATCAAACTTTTACGAGTT-ATTCTATAACATCAGTCCCTTAAA
* * *
546 G-TTTTCAAGATGATCCATTCCATCAAGCAATTTTCTA-AACAATCACATCAGTTGGTTC-AAAT
129 GATTTT--AGACGATCCATTCCATCAAGCAATTTTC-AGAACAATCACATAAGTTGGTCCAAAAT
* * * * *
608 AGTTTTTAATTTTGTATACAACTGTT-GGTCTTTGAATTAAGAACTTATTTACGTGAGAATTGTT
191 AGTTTGTAATTTTGTAAACAACT-TTCGGTCTTTGAATTAAAAACTTATTCACCTGAGAATTGTT
* ** * * *
672 TATCT-TCTGGTTCTTGGATTAACAACC-AGTTCT-AAACTTTTACGAGTTCTTTTATAACTTTG
255 TATCTGT-TGGTTCTTAGACGAACAACCAACTTCTCAAACATTTACGAGTTCTTTGATAACTTTG
* * * ** *
734 -GTTTCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGGG
319 AG-TCCTTAAAGTATTCAAGACGATCCATTCCTTCAAGAAATTTTCCAAACATTCCACGCTCGGG
* ***
798 GAATCGCATCATTTGGTCCAAATAGTTTGTGGTTC
383 AAATCGCATCATTTGGTCCAAATAGTTTGACATTC
** * * *
833 TGTAAACAACTTTTGGTCTTTGA-ATTGGAAACTTATTTACGTGAGAATTGTTTGTTTATTTGCT
1 TGTAAACAACTTTTGGTCTTTGATA-TAAAAACTTATTTACGTGAGAATTGTTTGTCTATTGGTT
*
897 ATTGGCCGAACT
65 CTTGGCCGAACT
909 TCTGAACATG
Statistics
Matches: 414, Mismatches: 66, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
413 2 0.00
414 174 0.42
415 5 0.01
416 5 0.01
417 79 0.19
418 144 0.35
419 5 0.01
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (417 bp):
TGTAAACAACTTTTGGTCTTTGATATAAAAACTTATTTACGTGAGAATTGTTTGTCTATTGGTTC
TTGGCCGAACTCTCCAAACTAATCAAACTTTTACGAGTTATTCTATAACATCAGTCCCTTAAAGA
TTTTAGACGATCCATTCCATCAAGCAATTTTCAGAACAATCACATAAGTTGGTCCAAAATAGTTT
GTAATTTTGTAAACAACTTTCGGTCTTTGAATTAAAAACTTATTCACCTGAGAATTGTTTATCTG
TTGGTTCTTAGACGAACAACCAACTTCTCAAACATTTACGAGTTCTTTGATAACTTTGAGTCCTT
AAAGTATTCAAGACGATCCATTCCTTCAAGAAATTTTCCAAACATTCCACGCTCGGGAAATCGCA
TCATTTGGTCCAAATAGTTTGACATTC
Found at i:1991 original size:213 final size:212
Alignment explanation
Indices: 1628--2528 Score: 851
Period size: 213 Copynumber: 4.3 Consensus size: 212
1618 CATTTGCATA
* * *
1628 ATTTGGTCCATATAGTTTGTCATTTCGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAC
1 ATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAAGTTATTTAC
* * * *
1693 GTCAGAATTGTTTCTCTCTTTGTTCTGGGATGAACTTCCAAACTTGTCAAACTTTTACGAGTTCT
66 GTGAGAATTGTTTCTCTCTTGGTTCTTGGAT-AACTTGCAAACTTGTCAAACTTTTACGAGTTCT
** * *** * * *
1758 TTTATAACATCAATTCCTTAAAGTATTCAAGACGGTCCATCCCTTTGGGCAATTTTCTAACCATT
130 TGAATAACTTTGGTTCCTTAAAGTATTCAAGACGGTCCATTCCTTCGAGCAATTTTCTAACCATT
* *
1823 TGTTCAGGAAATCACATA
195 TGTTCGGGAAATCACATC
*** * * *
1841 ATTTGGAATAAATAGTTTGCCATTTTGTAAACAACTTTTGGTCTTTGATTTAAAAAGTTAATTAC
1 ATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAAGTTATTTAC
* * * *
1906 GTGAGAATTGATTCTCTCTTGGTTCTTGGACTAACTTGCGAACTTGTCAAACTTGTATGAGTTCT
66 GTGAGAATTGTTTCTCTCTTGGTTCTTGGA-TAACTTGCAAACTTGTCAAACTTTTACGAGTTCT
* * * *
1971 TGAATAACTTTGGTTCCTTAAAGTATTCAAGATGATCCATTCCATCGAGCAATTTTTTGAACTTT
130 TGAATAACTTTGGTTCCTTAAAGTATTCAAGACGGTCCATTCCTTCGAGCAATTTTCT-AAC---
* *
2036 CA-ATGTTCGGGAAATCGCATC
191 CATTTGTTCGGGAAATCACATC
* * * *
2057 ATTTGGTCCAAATAATTTATTATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAATTTATTTAC
1 ATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAAGTTATTTAC
* * *
2122 GT-AGAATTGTTTATCTCTTGGTTCTTGG---AC--G-AAACTTGTCAAACTTTTACAAGCTCTT
66 GTGAGAATTGTTTCTCTCTTGGTTCTTGGATAACTTGCAAACTTGTCAAACTTTTACGAGTTCTT
* * *
2180 GAATAACTTTGGTTCCTTAAAGTATTCAAGACGGTCCATTCCTTCGAGTAATTTCCCGAA-CATT
131 GAATAACTTTGGTTCCTTAAAGTATTCAAGACGGTCCATTCCTTCGAGCAATTT-TCTAACCATT
* * *
2244 CCATGCTCGGGAAA-GAGTATC
195 ---TGTTCGGGAAATCA-CATC
* * * *
2265 ATTTTGTCCAAACAGTTAT-TCATTTTGTAAACAACTTTTGGTCTTTGATTTAAGAAGTTATTTA
1 ATTTGGTCCAAATAGTT-TGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAAGTTATTTA
* * ** * * *
2329 CGCGAGAATTGTTTCTCCCTTGGTTCTTGGCCGAACTTTCAAATTTGTCAAACTTTTACGAGTTT
65 CGTGAGAATTGTTTCTCTCTTGGTTCTTGG-ATAACTTGCAAACTTGTCAAACTTTTACGAGTTC
** * * * * * * * * *
2394 TTCTATAGCATCGATCCCTTAAAGCATTAAAGACGATCCATTCCTTCGAGCAATTTTC-AGAACA
129 TTGAATAACTTTGGTTCCTTAAAGTATTCAAGACGGTCCATTCCTTCGAGCAATTTTCTA-ACCA
*
2458 ----TTC--G------CATA
193 TTTGTTCGGGAAATCACATC
* *
2466 ATTTGGTCCAAAATAGTTTGTTATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATT
1 ATTTGGTCC-AAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAAGTTATT
2529 CACCTCAGAA
Statistics
Matches: 565, Mismatches: 99, Indels: 59
0.78 0.14 0.08
Matches are distributed among these distances:
201 11 0.02
202 46 0.08
204 2 0.00
207 1 0.00
208 144 0.25
209 28 0.05
211 2 0.00
213 158 0.28
214 5 0.01
215 26 0.05
216 140 0.25
217 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (212 bp):
ATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAAGTTATTTAC
GTGAGAATTGTTTCTCTCTTGGTTCTTGGATAACTTGCAAACTTGTCAAACTTTTACGAGTTCTT
GAATAACTTTGGTTCCTTAAAGTATTCAAGACGGTCCATTCCTTCGAGCAATTTTCTAACCATTT
GTTCGGGAAATCACATC
Found at i:2434 original size:424 final size:424
Alignment explanation
Indices: 1623--2450 Score: 975
Period size: 424 Copynumber: 1.9 Consensus size: 424
1613 CAGAACATTT
* * *
1623 GCATAATTTGGTCCATATAGTTTGTCATTTCGTAAACAACTTTTGGTCTTTGAATTAAAAACTTA
1 GCATAATTTGGTCCAAATAATTTATCATTTCGTAAACAACTTTTGGTCTTTGAATTAAAAACTTA
* * *
1688 TTTACGTCAGAATTGTTTCTCTCTTTGTTCTGGGATGAACTTCCAAACTTGTCAAACTTTTACGA
66 TTTACGTCAGAATTGTTTATCTCTTGGTTCT--G-TGAA--TCCAAACTTGTCAAACTTTTACAA
* ** * * * *
1753 GTTCTTTTATAACATCAATTCCTTAAAGTATTCAAGACGGTCCATCCCTTTGGGCAATTTTCTAA
126 GCTCTTGAATAACATCAATTCCTTAAAGTATTCAAGACGGTCCATCCCTTCGAGCAATTTCCGAA
* * *
1818 CCATTTGTTCAGGAAATCACATAATTTGGAATAAATAGTTTGCCATTTTGTAAACAACTTTTGGT
191 CCATTTGCTCAGGAAATCACATAATTTGGAACAAACAGTTTGCCATTTTGTAAACAACTTTTGGT
* * * *
1883 CTTTGATTTAAAAAGTTAATTACGTGAGAATTGATTCTCTCTTGGTTCTTGGACTAACTTGCGAA
256 CTTTGATTTAAAAAGTTAATTACGCGAGAATTGATTCTCCCTTGGTTCTTGGACGAACTTGCAAA
* * * * * * * * *
1948 CTTGTCAAACTTGTATGAGTTCTTGAATAACTTTGGTTCCTTAAAGTATTCAAGATGATCCATTC
321 CTTGTCAAACTTGTACGAGTTCTTCAATAACATCGATCCCTTAAAGCATTAAAGACGATCCATTC
2013 CATCGAGCAATTTTTTGAACTTTCAATGTTCGGGAAATC
386 CATCGAGCAATTTTTTGAACTTTCAATGTTCGGGAAATC
* * * *
2052 GCATCATTTGGTCCAAATAATTTATTATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAATTTA
1 GCATAATTTGGTCCAAATAATTTATCATTTCGTAAACAACTTTTGGTCTTTGAATTAAAAACTTA
* *
2117 TTTACGT-AGAATTGTTTATCTCTTGGTTCT-TGGA-CGAAACTTGTCAAACTTTTACAAGCTCT
66 TTTACGTCAGAATTGTTTATCTCTTGGTTCTGTGAATCCAAACTTGTCAAACTTTTACAAGCTCT
* *** * *
2179 TGAATAACTTTGGTTCCTTAAAGTATTCAAGACGGTCCATTCCTTCGAGTAATTTCCCGAA-CAT
131 TGAATAACATCAATTCCTTAAAGTATTCAAGACGGTCCATCCCTTCGAGCAATTT-CCGAACCAT
* * * * * ** *
2243 TCCATGCTCGGGAAA-GAGTATCATTTTGTCCAAACAGTTAT-TCATTTTGTAAACAACTTTTGG
195 T---TGCTCAGGAAATCA-CATAATTTGGAACAAACAGTT-TGCCATTTTGTAAACAACTTTTGG
* * * * *
2306 TCTTTGATTTAAGAAGTTATTTACGCGAGAATTGTTTCTCCCTTGGTTCTTGGCCGAACTTTCAA
255 TCTTTGATTTAAAAAGTTAATTACGCGAGAATTGATTCTCCCTTGGTTCTTGGACGAACTTGCAA
* * * * *
2371 ATTTGTCAAACTTTTACGAGTTTTTCTATAGCATCGATCCCTTAAAGCATTAAAGACGATCCATT
320 ACTTGTCAAACTTGTACGAGTTCTTCAATAACATCGATCCCTTAAAGCATTAAAGACGATCCATT
*
2436 CCTTCGAGCAATTTT
385 CCATCGAGCAATTTT
2451 CAGAACATTC
Statistics
Matches: 333, Mismatches: 60, Indels: 17
0.81 0.15 0.04
Matches are distributed among these distances:
421 74 0.22
422 3 0.01
423 1 0.00
424 168 0.50
425 1 0.00
428 21 0.06
429 65 0.20
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (424 bp):
GCATAATTTGGTCCAAATAATTTATCATTTCGTAAACAACTTTTGGTCTTTGAATTAAAAACTTA
TTTACGTCAGAATTGTTTATCTCTTGGTTCTGTGAATCCAAACTTGTCAAACTTTTACAAGCTCT
TGAATAACATCAATTCCTTAAAGTATTCAAGACGGTCCATCCCTTCGAGCAATTTCCGAACCATT
TGCTCAGGAAATCACATAATTTGGAACAAACAGTTTGCCATTTTGTAAACAACTTTTGGTCTTTG
ATTTAAAAAGTTAATTACGCGAGAATTGATTCTCCCTTGGTTCTTGGACGAACTTGCAAACTTGT
CAAACTTGTACGAGTTCTTCAATAACATCGATCCCTTAAAGCATTAAAGACGATCCATTCCATCG
AGCAATTTTTTGAACTTTCAATGTTCGGGAAATC
Found at i:3446 original size:24 final size:26
Alignment explanation
Indices: 3417--3465 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
3407 GCAATGCAAA
*
3417 TTTTGAAA-TATTAAAAA-AAAAAAG
1 TTTTGAAAGTATCAAAAACAAAAAAG
3441 TTTTGAAAGTATCAAAAACAAAAAA
1 TTTTGAAAGTATCAAAAACAAAAAA
3466 AAGGCTAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.36
25 8 0.36
26 6 0.27
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.27
Consensus pattern (26 bp):
TTTTGAAAGTATCAAAAACAAAAAAG
Found at i:4755 original size:17 final size:17
Alignment explanation
Indices: 4733--4773 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
4723 CCACCAAGTC
4733 GTGCCAAGGAGAAACTG
1 GTGCCAAGGAGAAACTG
* *
4750 GTGCCAAGGAGCAAGTG
1 GTGCCAAGGAGAAACTG
4767 GTGCCAA
1 GTGCCAA
4774 CAAAGTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.32, C:0.20, G:0.37, T:0.12
Consensus pattern (17 bp):
GTGCCAAGGAGAAACTG
Found at i:5282 original size:39 final size:39
Alignment explanation
Indices: 5238--5332 Score: 163
Period size: 39 Copynumber: 2.4 Consensus size: 39
5228 TAAGTTATTA
5238 AATGTGTCTTAGTTTGATACATATTTAATAGTTGTTTTT
1 AATGTGTCTTAGTTTGATACATATTTAATAGTTGTTTTT
*
5277 AATGTGTCTTATTTTGATACATATTTAATAGTTGTTTTT
1 AATGTGTCTTAGTTTGATACATATTTAATAGTTGTTTTT
* *
5316 AAGGTGTCTAAGTTTGA
1 AATGTGTCTTAGTTTGA
5333 GACAAATTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.26, C:0.05, G:0.17, T:0.52
Consensus pattern (39 bp):
AATGTGTCTTAGTTTGATACATATTTAATAGTTGTTTTT
Found at i:8671 original size:15 final size:15
Alignment explanation
Indices: 8633--8714 Score: 78
Period size: 15 Copynumber: 5.5 Consensus size: 15
8623 TCGTAACTCG
*
8633 AGTGTTCGCAACATC
1 AGTGTTCACAACATC
**
8648 AGTACTCACAACA-C
1 AGTGTTCACAACATC
8662 TAGTGTTCACAACATC
1 -AGTGTTCACAACATC
* *
8678 AGTGTTCGCAGC-TCC
1 AGTGTTCACAACAT-C
*
8693 AGTGTTCACAACATG
1 AGTGTTCACAACATC
8708 AGTGTTC
1 AGTGTTC
8715 GCATCTTCTA
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
14 2 0.04
15 49 0.92
16 2 0.04
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (15 bp):
AGTGTTCACAACATC
Found at i:9179 original size:216 final size:216
Alignment explanation
Indices: 8785--9242 Score: 654
Period size: 216 Copynumber: 2.1 Consensus size: 216
8775 GCATAAGTTA
* * *
8785 TTGGACGAACTTTCGAACTTGTCAAACTTTTACAATTTCTTTTAGAACTTCGGTTCCTTAAAGTA
1 TTGGACAAACTTTCGAACTTGTCAAACTTTTACAAGTTCTTTTAGAACTTCGGTTCCTAAAAGTA
* * **
8850 TTCTAGACGATCCATTCCTTCGAGAGATGTTTCAAACATTCCATGCTCGAGAAATCGCATCATTT
66 TTCCAGACGATCCATTCCTTCAAGAGATGTTTCAAACATTCCATGCTCGAGAAATCAAATCATTT
* *
8915 GGTCTAAATAGTTTGTCATTTTGTCAACAAGTTTTGTCCTTTGAATTAAAAACTTATTTACGTGA
131 GGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGTCATTTGAATTAAAAACTTATTTACGTGA
*
8980 GAATTGTTTCTCTC-TGCGTTC
196 GAATTGTCTCTCTCTTG-GTTC
* * *
9001 TTGGACAAACTTTTGAACTTGTCAAACTTTTACAAGTTCTTTTATAACTTCGGTTCCTAAAATTA
1 TTGGACAAACTTTCGAACTTGTCAAACTTTTACAAGTTCTTTTAGAACTTCGGTTCCTAAAAGTA
* * * *
9066 TTCCAGACGATCCATTCCTTCAAGCA-AT-TTTCTGAACATTCCATTCTCGGGAAATCAAATTAT
66 TTCCAGACGATCCATTCCTTCAAG-AGATGTTTC-AAACATTCCATGCTCGAGAAATCAAATCAT
* * * * *
9129 TTGGTCTAAATAGTTTTTCCTTTTGTAAACAAGTTTTG-GATTTCGAATTAAAAATTTATTTTCG
129 TTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGTCATTT-GAATTAAAAACTTATTTACG
9193 TGAGAATTGTCTCTCTCTTGGTTC
193 TGAGAATTGTCTCTCTCTTGGTTC
9217 TTGGACAAACTTTCGAACTTGTCAAA
1 TTGGACAAACTTTCGAACTTGTCAAA
9243 AACTTATTTA
Statistics
Matches: 215, Mismatches: 23, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
215 7 0.03
216 205 0.95
217 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (216 bp):
TTGGACAAACTTTCGAACTTGTCAAACTTTTACAAGTTCTTTTAGAACTTCGGTTCCTAAAAGTA
TTCCAGACGATCCATTCCTTCAAGAGATGTTTCAAACATTCCATGCTCGAGAAATCAAATCATTT
GGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGTCATTTGAATTAAAAACTTATTTACGTGA
GAATTGTCTCTCTCTTGGTTC
Found at i:9294 original size:61 final size:62
Alignment explanation
Indices: 9178--9303 Score: 184
Period size: 61 Copynumber: 2.0 Consensus size: 62
9168 ATTTCGAATT
* *
9178 AAAAATTTATTTTCGTGAGAATTGTCTCTCTCTTGGTTCTTGGACAAACTTTCGAACTTGTC
1 AAAAACTTATTTTCGTGAGAAATGTCTCTCTCTTGGTTCTTGGACAAACTTTCGAACTTGTC
* * *
9240 AAAAACTTATTTAT-GTGGGAAATGTTTCTCTCTT-GTTCTTGGACGAACTTTCGAACTTGTC
1 AAAAACTTATTT-TCGTGAGAAATGTCTCTCTCTTGGTTCTTGGACAAACTTTCGAACTTGTC
9301 AAA
1 AAA
9304 CTTTTACGAG
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
61 29 0.50
62 28 0.48
63 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (62 bp):
AAAAACTTATTTTCGTGAGAAATGTCTCTCTCTTGGTTCTTGGACAAACTTTCGAACTTGTC
Found at i:9610 original size:215 final size:215
Alignment explanation
Indices: 9240--9730 Score: 709
Period size: 215 Copynumber: 2.3 Consensus size: 215
9230 CGAACTTGTC
* * * *
9240 AAAAACTTATTTATGTGGGAAATGTTTCTCTCTTGTTCTTGGACGAACTTTCGAACTTGTCAAAC
1 AAAAACTTATTTCTGTGAGAATTGTTTCTCTCTTGTTCTTGGACGAACTTTCAAACTTGTCAAAC
* * * * *
9305 TTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTTATCAAGACGATCCATTCCTTCGAGCAA
66 TTTTACAAGTTATTTTATAACTTTGATTCCTTAAAGTTATCAAGACGATCCATTCATTCGAGAAA
* ** * * *
9370 TTTTTTGAACATTCCATGCTCGGGAAATCGCCTAATTTGGTTTAAATAGTTTGTCA-ATTGTAAA
131 TTTCTCAAACATTCCATGCTCGGGAAATCACATAATTTGGTTAAAATAGTTTGTCATATTGTAAA
* *
9434 CAAGTTTTGGTCTTTGAATT
196 CAAGTTTTGGACTTTAAATT
* *
9454 AAAAACTTATTTCTGTGAGAATTGTTTCTCTCTTGATTCTTGGACAAACTTCCAAACTTGTCAAA
1 AAAAACTTATTTCTGTGAGAATTGTTTCTCTCTTG-TTCTTGGACGAACTTTCAAACTTGTCAAA
*
9519 CTTTTACAAGTTATTTTATAA-TTTCGATTCCTTAAAGTTTTCAAGACGATCCATTCATTCGAGA
65 CTTTTACAAGTTATTTTATAACTTT-GATTCCTTAAAGTTATCAAGACGATCCATTCATTCGAGA
* * *
9583 AATTTCTCAAACATTCCATTCTCGGGAAATCACATCATTTGGTTAAAATAGTTTGTCATTTTGTA
129 AATTTCTCAAACATTCCATGCTCGGGAAATCACATAATTTGGTTAAAATAGTTTGTCATATTGTA
9648 AACAAGTTTTGGACTTTAAATT
194 AACAAGTTTTGGACTTTAAATT
*
9670 AAAAACTTAGTTAC-GTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCAAACTTGT
1 AAAAACTTA-TTTCTGTGAGAATTGTTTCTCTCTT-GTTCTTGGACGAACTTTCAAACTTGT
9731 AAAAAACTTA
Statistics
Matches: 246, Mismatches: 26, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
214 35 0.14
215 130 0.53
216 77 0.31
217 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (215 bp):
AAAAACTTATTTCTGTGAGAATTGTTTCTCTCTTGTTCTTGGACGAACTTTCAAACTTGTCAAAC
TTTTACAAGTTATTTTATAACTTTGATTCCTTAAAGTTATCAAGACGATCCATTCATTCGAGAAA
TTTCTCAAACATTCCATGCTCGGGAAATCACATAATTTGGTTAAAATAGTTTGTCATATTGTAAA
CAAGTTTTGGACTTTAAATT
Found at i:9767 original size:62 final size:62
Alignment explanation
Indices: 9670--9792 Score: 210
Period size: 62 Copynumber: 2.0 Consensus size: 62
9660 ACTTTAAATT
* *
9670 AAAAACTTAGTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCAAACTTGTA
1 AAAAACTTAGTTACGTGAGAATTATTTCTCTCTTGGTTATTGGACGAACTTTCAAACTTGTA
* *
9732 AAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTATTGGACGAACTTTCGAACTTGT
1 AAAAACTTAGTTACGTGAGAATTATTTCTCTCTTGGTTATTGGACGAACTTTCAAACTTGT
9793 CAAACTTTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (62 bp):
AAAAACTTAGTTACGTGAGAATTATTTCTCTCTTGGTTATTGGACGAACTTTCAAACTTGTA
Found at i:10114 original size:216 final size:213
Alignment explanation
Indices: 9732--10439 Score: 785
Period size: 216 Copynumber: 3.3 Consensus size: 213
9722 CAAACTTGTA
* *
9732 AAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTATTGGACGAACTTTCGAACTTGTCAAA
1 AAAAACTTATTTACGTGAGAATT-TTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAA
*
9797 CTTTTACTAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCATTGAGCA
65 CTTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCC-TTGAGCA
* *** * * * *
9862 ATTTTTTGAGCATTCCATGCTCG-GAAGATTGCATCATTTCATCTAAATAGTTTGTCACTTTGTA
129 AATTTCCAAACATTCCATGCTCGAGAA-ATCGCATCATTT-ATCAAAATAGTTTGTCATTTTGTA
** * *
9926 AACAAACTTAGGTGTTTGAAAT
192 AACAAGTTTTGGTCTTTGAAAT
* * * *
9948 AAAAACTTATTTATGTGAGAATTGTTTCCCTCTTGTTTTTTGGACGAACTTCCGAACTTGTCAAA
1 AAAAACTTATTTACGTGAGAATT-TTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAA
** * * *
10013 CTTCGACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTTAAGACGATCCGTTCCTTCGAGCA
65 CTTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTT-GAGCA
* * * *
10078 AATTTCCAAACATTCCCTACTCGAGAACTCGCATCATTTAGTCAAAATAGTTCT-TTATTTTGTA
129 AATTTCCAAACATTCCATGCTCGAGAAATCGCATCATTTA-TCAAAATAGTT-TGTCATTTTGTA
*
10142 AACAAGTTTTGGTCTTTGAATT
192 AACAAGTTTTGGTCTTTGAAAT
* * * * * *
10164 AAAAACTTAATTATGTGATAATTTGATCTCTCTTGGTTCTTGGATGAACTTTCGAACTTGTCAAA
1 AAAAACTTATTTACGTGAGAATTT-TTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAA
* * * * * * * *
10229 CTTTTACAAGTTCTTATATAGCTTAGGTTCTTTAAAATATTCAAGACAAACCATTCCTTTGAG-A
65 CTTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCC-TTGAGCA
* * * *
10293 AATTTTCCAAATATTCCATGCTCGAGAAATCACATCATTTGGTAAAAATAGTTTGTCATTTTGTA
129 AA-TTTCCAAACATTCCATGCTCGAGAAATCGCATCATTT-ATCAAAATAGTTTGTCATTTTGTA
* *
10358 AACAAGTTTTCGACTTT-AAATT
192 AACAAGTTTTGGTCTTTGAAA-T
* * * * *
10380 AAAAACTTAGTTGCGTGAGAATTTTTTTCTCTTGATTCTTGGACGAACTTCCAAACTTGT
1 AAAAACTTATTTACGTGAGAATTTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGT
10440 TAAAAACATA
Statistics
Matches: 412, Mismatches: 70, Indels: 21
0.82 0.14 0.04
Matches are distributed among these distances:
215 40 0.10
216 366 0.89
217 6 0.01
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (213 bp):
AAAAACTTATTTACGTGAGAATTTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAAC
TTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTGAGCAAA
TTTCCAAACATTCCATGCTCGAGAAATCGCATCATTTATCAAAATAGTTTGTCATTTTGTAAACA
AGTTTTGGTCTTTGAAAT
Found at i:10487 original size:62 final size:62
Alignment explanation
Indices: 10378--10622 Score: 275
Period size: 62 Copynumber: 4.0 Consensus size: 62
10368 CGACTTTAAA
* * * *
10378 TTAAAAACTTAGTTGCGTGAGAATT-TTTTTCTCTT-GATTCTTGGACGAACTTCCAAACTTG
1 TTAAAAACTTATTTACGTAAGAATTATTTCTCTCTTGGA-TCTTGGACGAACTTCCAAACTTG
* * * * * * *
10439 TTAAAAACATATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGATA-TAG
1 TTAAAAACTTATTTACGTAAGAATTATTTCTCTCTTGGATCTTGGACGAAC-TTCCAAACTTG
* * *
10501 TCAAAAACTTATTTACGTAAGAATTATTT-TGTTCTTGGATCTTGGACGAACTTCCGAACTTG
1 TTAAAAACTTATTTACGTAAGAATTATTTCT-CTCTTGGATCTTGGACGAACTTCCAAACTTG
* *
10563 TTAAAAACTTATTTACGTAAGAATTATTTCTTTCTTGGATCTTGGAC-AACCTTCCGAACT
1 TTAAAAACTTATTTACGTAAGAATTATTTCTCTCTTGGATCTTGGACGAA-CTTCCAAACT
10623 AGTCAAACTT
Statistics
Matches: 158, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
61 29 0.18
62 122 0.77
63 7 0.04
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (62 bp):
TTAAAAACTTATTTACGTAAGAATTATTTCTCTCTTGGATCTTGGACGAACTTCCAAACTTG
Found at i:10549 original size:124 final size:123
Alignment explanation
Indices: 10380--10609 Score: 338
Period size: 124 Copynumber: 1.9 Consensus size: 123
10370 ACTTTAAATT
* *
10380 AAAAACTTAGTTGCGTGAGAATTTTTTTCTCTTGATTCTTGGACGAACTTCCAAACTTGTTAAAA
1 AAAAACTTAGTTACGTAAGAATTTTTTTCTCTTGATTCTTGGACGAACTTCCAAACTTGTTAAAA
* * *
10445 ACATATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGATATAGTC
66 ACATATTTACGTAAGAATTATTTCTCTCTTGGATCTTGGACGAACTTTCGATATAGTC
* *
10503 AAAAACTTATTTACGTAAGAATTATTTTGT-TCTTGGA-TCTTGGACGAACTTCCGAACTTGTTA
1 AAAAACTTAGTTACGTAAGAATT-TTTT-TCTCTT-GATTCTTGGACGAACTTCCAAACTTGTTA
* *
10566 AAAACTTATTTACGTAAGAATTATTTCTTTCTTGGATCTTGGAC
63 AAAACATATTTACGTAAGAATTATTTCTCTCTTGGATCTTGGAC
10610 AACCTTCCGA
Statistics
Matches: 95, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
123 20 0.21
124 72 0.76
125 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.40
Consensus pattern (123 bp):
AAAAACTTAGTTACGTAAGAATTTTTTTCTCTTGATTCTTGGACGAACTTCCAAACTTGTTAAAA
ACATATTTACGTAAGAATTATTTCTCTCTTGGATCTTGGACGAACTTTCGATATAGTC
Found at i:10941 original size:216 final size:216
Alignment explanation
Indices: 10563--11276 Score: 909
Period size: 216 Copynumber: 3.3 Consensus size: 216
10553 TCCGAACTTG
* * * * * * *
10563 TTAAAAACTTATTTACGTAAGAATTATTTCTTTCTTGGATCTTGGACAACCTTCCGAACTAGTCA
1 TTAAAAACTTATTTACATGAGAATTATTTCTCTCTTGGTTCTTGGACAAACTTCTGAACTTGTCA
* * * * *
10628 AACTTTTACAATTTTTTTTATAACTTCGGTACCTTAAAGTATTCAAGACGATCCACTCCTTT-AA
66 AACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCA-TTCTTTCAA
* ** *
10692 GTAATTTTTCGAACATTCCATGCTAGGGAAATCGCAAAATTTGGTCTAAATAGTTTCTCATTTTG
130 GAAATTTTTCGAACATTCCATGCTAGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTG
10757 TAAACAAGTTTTGGTATTTGAA
195 TAAACAAGTTTTGGTATTTGAA
* * * *
10779 TTAAAAACTTATTTATATGAGAATTGTTTTTCTCTTGGTTCTTGGACAAACTTCTAAACTTGTCA
1 TTAAAAACTTATTTACATGAGAATTATTTCTCTCTTGGTTCTTGGACAAACTTCTGAACTTGTCA
* * * * *
10844 AACTTTTATGAGTTCTTTTATAACTTCGATTCCTTAAACTATTCAAGACAATTCATTCTTTCAAG
66 AACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCTTTCAAG
* *
10909 CAAATTTTT-GAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTG
131 -AAATTTTTCGAACATTCCATGCTAGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTG
* *
10973 TAAACAAGTTTTGTTCTTTGAA
195 TAAACAAGTTTTGGTATTTGAA
* * * * *
10995 TCAATAACTTATTTACGTGAGAATTATTTCTCTCTTGTTTCTTGGACGAACTT-TCGAACTTGTC
1 TTAAAAACTTATTTACATGAGAATTATTTCTCTCTTGGTTCTTGGACAAACTTCT-GAACTTGTC
* * * * *
11059 AAACTTTCACGAGTTCTTTTATAACTTTGGTTCCTAAAAGTATTCTAGACGATCCATT-TCTTCG
65 AAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCT-TTCA
* * *
11123 AGAAATTTTTCAAACATTCCATGCTAGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTG
129 AGAAATTTTTCGAACATTCCATGCTAGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTT
*
11188 GCAAACAAGTTTT-GTATTTTGAA
194 GTAAACAAGTTTTGGTA-TTTGAA
* * * * *
11211 TTAAAAAGTTATTT-CATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACCTGTCA
1 TTAAAAACTTATTTACATGAGAATTATTTCTCTCTTGGTTCTTGGACAAACTTCTGAACTTGTCA
11275 AA
66 AA
11277 AACTTATTTA
Statistics
Matches: 427, Mismatches: 64, Indels: 15
0.84 0.13 0.03
Matches are distributed among these distances:
215 62 0.15
216 358 0.84
217 7 0.02
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (216 bp):
TTAAAAACTTATTTACATGAGAATTATTTCTCTCTTGGTTCTTGGACAAACTTCTGAACTTGTCA
AACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCTTTCAAG
AAATTTTTCGAACATTCCATGCTAGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT
AAACAAGTTTTGGTATTTGAA
Found at i:11299 original size:833 final size:831
Alignment explanation
Indices: 9670--11396 Score: 2273
Period size: 833 Copynumber: 2.1 Consensus size: 831
9660 ACTTTAAATT
* * * *
9670 AAAAACTTAGTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCAAACTTGTAAAA
1 AAAAACTTATTTACGTGAGAATT-TTT-TTTCTTGGTTCTTGGACGAACTTCCGAACTTGTAAAA
* * * *
9735 AACTTATTTACGTGAGAATTATTTCTCTCTTGGTTATTGGACGAACTTTCGAACTTGTCAAACTT
64 AACTTATTTACGTAAGAATTATTTCTCTCTTGGATATTGGACGAACTTCCGAACTAGTCAAACTT
* * * *
9800 TTACTAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCATTGAGCAATT
129 TTACAAGTTCTTTTATAACTTCGATACCTTAAAGTATTCAAGACGATCCACTCCATTAAGCAATT
* * * ** *
9865 TTTTGAGCATTCCATGCTCGGAAGATTGCATCATTTCATCTAAATAGTTTGTCACTTTGTAAACA
194 TTTCGAACATTCCATGCTCGGAAGATCGCAAAATTTCATCTAAATAGTTTCTCACTTTGTAAACA
* * * * *
9930 AACTTAGGTGTTTGAAATAAAAACTTATTTATGTGAGAATTGTTTCCCTCTTGTTTTTTGGACGA
259 AACTTAGGTATTTGAAATAAAAACTTATTTATATGAGAATTGTTTCCCTCTTGGTTCTTGGACAA
* * *
9995 ACTTCCGAACTTGTCAAACTTCGACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTTAAGAC
324 ACTTCCAAACTTGTCAAACTTCGACGAGTTCTTTTATAACTTCGATTCCTTAAACTATTCAAGAC
* * * * *
10060 GATCCGTTCCTTCGAGCAAATTTCCAAACATTCCCTACTCGAGAACTCGCATCATTTAGTCAAAA
389 AATCCATTCCTTCAAGCAAATTTCCAAACATTCCATACTCGAGAAATCGCATCATTTAGTCAAAA
* * * *
10125 TAGTTCTTTATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTAATTATGTGATAATTTGA
454 TAGTTCTTCATTTTGTAAACAAGTTTTGGTCTTTGAATCAAAAACTTAATTACGTGAGAATTTGA
* * *
10190 TCTCTCTTGGTTCTTGGATGAACTTTCGAACTTGTCAAACTTTTACAAGTTCTTATATAGCTTAG
519 TCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTCACAAGTTCTTATATAACTTAG
* * * *
10255 GTTCTTTAAAATATTCAAGACAAACCATTCCTTTGAGAAATTTTCCAAATATTCCATGCTCGAGA
584 GTTCTCTAAAATATTCAAGACAAACCATTCCTTCGAGAAATTTTCCAAACATTCCATGCTAGAGA
* *
10320 AATCACATCATTTGGTAAAAATAGTTTGTCATTTTGTAAACAAGTTTTCGACTTTAAATTAAAAA
649 AATCACATCATTTGGTAAAAATAGTTTGTCATTTGGCAAACAAGTTTTCGACTTTAAATTAAAAA
* * * *
10385 CTTAGTTGCGTGAGAATTTTTTTCTCTTGATTCTTGGACGAACTTCCAAACTTGTTAAAAACATA
714 CTTAGTTGCATGAGAATTTTTCTCTCTTGATTCTTGGACGAACTTCCAAACCTGTCAAAAACATA
* * *
10450 TTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGATA-TAGTC
779 TTTACGTCAAAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGA-ACTAGTC
* * *
10503 AAAAACTTATTTACGTAAGAATTATTTTGTTCTTGGATCTTGGACGAACTTCCGAACTTGTTAAA
1 AAAAACTTATTTACGTGAGAATT-TTTT-TTCTTGGTTCTTGGACGAACTTCCGAACTTGTAAAA
* *
10568 AACTTATTTACGTAAGAATTATTTCTTTCTTGGATCTTGGAC-AACCTTCCGAACTAGTCAAACT
64 AACTTATTTACGTAAGAATTATTTCTCTCTTGGATATTGGACGAA-CTTCCGAACTAGTCAAACT
* * * * *
10632 TTTACAATTTTTTTTATAACTTCGGTACCTTAAAGTATTCAAGACGATCCACTCCTTTAAGTAAT
128 TTTACAAGTTCTTTTATAACTTCGATACCTTAAAGTATTCAAGACGATCCACTCCATTAAGCAAT
* ** *
10697 TTTTCGAACATTCCATGCTAGGGAA-ATCGCAAAATTTGGTCTAAATAGTTTCTCATTTTGTAAA
193 TTTTCGAACATTCCATGCT-CGGAAGATCGCAAAATTTCATCTAAATAGTTTCTCACTTTGTAAA
** * * **
10761 CAAGTTTTGGTATTTGAATTAAAAACTTATTTATATGAGAATTGTTTTTCTCTTGGTTCTTGGAC
257 CAAACTTAGGTATTTGAAATAAAAACTTATTTATATGAGAATTGTTTCCCTCTTGGTTCTTGGAC
* ** *
10826 AAACTTCTAAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTCGATTCCTTAAACTATTCAAG
322 AAACTTCCAAACTTGTCAAACTTCGACGAGTTCTTTTATAACTTCGATTCCTTAAACTATTCAAG
* * *** * * *
10891 ACAATTCATTCTTTCAAGCAAATTTTTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTA
387 ACAATCCATTCCTTCAAGCAAATTTCCAAACATTCCATACTCGAGAAATCGCATCATTTAGTCAA
* * *
10956 AATAGTT-TGTCATTTTGTAAACAAGTTTTGTTCTTTGAATCAATAACTTATTTACGTGAGAATT
452 AATAGTTCT-TCATTTTGTAAACAAGTTTTGGTCTTTGAATCAAAAACTTAATTACGTGAGAATT
* * * *
11020 AT-TTCTCTCTTGTTTCTTGGACGAACTTTCGAACTTGTCAAACTTTCACGAGTTCTTTTATAAC
516 -TGATCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTCACAAGTTCTTATATAAC
* * * * * *
11084 TTTGGTTC-CTAAAAGTATTCTAGACGATCCATTTCTTCGAGAAATTTTTCAAACATTCCATGCT
580 TTAGGTTCTCTAAAA-TATTCAAGACAAACCATTCCTTCGAGAAATTTTCCAAACATTCCATGCT
* ** * *
11148 AGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTGGCAAACAAGTTTT-GTATTTTGAAT
644 AGAGAAATCACATCATTTGGTAAAAATAGTTTGTCATTTGGCAAACAAGTTTTCG-ACTTTAAAT
* * * *
11212 TAAAAAGTTA-TTTCATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACCTGTCAA
708 TAAAAACTTAGTTGCATGAGAATT-TTTCTCTCTTGATTCTTGGACGAACTTCCAAACCTGTCAA
* * * *
11276 AAACTTATTTATGTCAAAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTC
772 AAACATATTTACGTCAAAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTAGTC
* *
11336 AAAAACTTATTTACGTGAGAATTTTTTCTCTCTTGGTTGTTGGACGAACTTCTGAACTTGT
1 AAAAACTTATTTACGTGAGAATTTTTT-T-TCTTGGTTCTTGGACGAACTTCCGAACTTGT
11397 CAAACTTCTA
Statistics
Matches: 769, Mismatches: 115, Indels: 20
0.85 0.13 0.02
Matches are distributed among these distances:
832 27 0.04
833 737 0.96
834 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (831 bp):
AAAAACTTATTTACGTGAGAATTTTTTTTCTTGGTTCTTGGACGAACTTCCGAACTTGTAAAAAA
CTTATTTACGTAAGAATTATTTCTCTCTTGGATATTGGACGAACTTCCGAACTAGTCAAACTTTT
ACAAGTTCTTTTATAACTTCGATACCTTAAAGTATTCAAGACGATCCACTCCATTAAGCAATTTT
TCGAACATTCCATGCTCGGAAGATCGCAAAATTTCATCTAAATAGTTTCTCACTTTGTAAACAAA
CTTAGGTATTTGAAATAAAAACTTATTTATATGAGAATTGTTTCCCTCTTGGTTCTTGGACAAAC
TTCCAAACTTGTCAAACTTCGACGAGTTCTTTTATAACTTCGATTCCTTAAACTATTCAAGACAA
TCCATTCCTTCAAGCAAATTTCCAAACATTCCATACTCGAGAAATCGCATCATTTAGTCAAAATA
GTTCTTCATTTTGTAAACAAGTTTTGGTCTTTGAATCAAAAACTTAATTACGTGAGAATTTGATC
TCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTCACAAGTTCTTATATAACTTAGGT
TCTCTAAAATATTCAAGACAAACCATTCCTTCGAGAAATTTTCCAAACATTCCATGCTAGAGAAA
TCACATCATTTGGTAAAAATAGTTTGTCATTTGGCAAACAAGTTTTCGACTTTAAATTAAAAACT
TAGTTGCATGAGAATTTTTCTCTCTTGATTCTTGGACGAACTTCCAAACCTGTCAAAAACATATT
TACGTCAAAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTAGTC
Found at i:11309 original size:62 final size:62
Alignment explanation
Indices: 11231--11400 Score: 268
Period size: 62 Copynumber: 2.7 Consensus size: 62
11221 ATTTCATGAG
* *
11231 AATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACCTGTCAAAAACTTATTTATGTCAA
1 AATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAAAACTTATTTACGTCAA
* * *
11293 AATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAAAACTTATTTACGTGAG
1 AATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAAAACTTATTTACGTCAA
* * *
11355 AATTTTTTCTCTCTTGGTTGTTGGACGAACTTCTGAACTTGTCAAA
1 AATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAA
11401 CTTCTATGAG
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 99 1.00
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (62 bp):
AATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAAAACTTATTTACGTCAA
Found at i:12506 original size:216 final size:216
Alignment explanation
Indices: 11784--12557 Score: 1031
Period size: 216 Copynumber: 3.6 Consensus size: 216
11774 CGAACTTGTC
* * * * * *
11784 AAAAACCTATTTACGT-ACGAATTGTTTCTTTCTAGGATCTTGGACAAACTTCCGAACTAGTCAA
1 AAAAACCTATTTACGTGA-GAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCAA
* * * * *
11848 ACTTTTACGATTTCTTTTATAACTTTCGTTCCTTAAAGTATTCAAGACGATTCATTCCTTTGAGC
65 ACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGC
* * * *
11913 AATTTTTCGAACAATCCATGCTC-AGGAAATCACA-CAATTTGGACTAAATAGTTTCTTATTTTG
130 AATTTTTCGAACATTCCATGCTCGA-GAAATCGCATC-ATTTGGACTAAATAGTTTGTCATTTTG
* *
11976 TAAACAA-CTTTTGGTATTTGAATT
193 TAAACAAGC-TTTGGTCTTTAAATT
* * *
12000 AAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAA
1 AAAAACCTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCAAA
* ** * * * * * *
12065 CTTTTACGAATTCTTTTATAACTTCAGTTCCTCACAGT-TTCAAGATAATTCGTTCCTTCGATCA
66 CTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCA
*
12129 ATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
131 ATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGACTAAATAGTTTGTCATTTTGTAA
* *
12194 ACAAGTTTTGGTCTTTAGATT
196 ACAAGCTTTGGTCTTTAAATT
* * *
12215 -AAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCAAAATTGTCAAA
1 AAAAACCTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCAAA
* * * * * *
12279 CTTTCACGAGTTCTTTTATAACATTGGTTCCTAAAAGTATTCCAGACAATCCATTTCTTCAAGCA
66 CTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGC-
* *
12344 AATTTTT-GAACATTCCATGCTCGAGAAATCGCATCATTTGGACTAAATAGTTTGTCAATTTGAA
130 AATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGACTAAATAGTTTGTCATTTTGTA
12408 AACAAGCTTTGGTCTTTAAATT
195 AACAAGCTTTGGTCTTTAAATT
* *
12430 AAAAACCTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGTACGAACTTTCAAACTTGTCAAA
1 AAAAACCTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCAAA
* *
12495 CTTTTACGAGTTCATTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAG
66 CTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAG
12558 AACTTTCAAA
Statistics
Matches: 491, Mismatches: 60, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
214 91 0.19
215 185 0.38
216 214 0.44
217 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (216 bp):
AAAAACCTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTGTCAAA
CTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCA
ATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGACTAAATAGTTTGTCATTTTGTAA
ACAAGCTTTGGTCTTTAAATT
Found at i:12624 original size:144 final size:144
Alignment explanation
Indices: 12430--12703 Score: 442
Period size: 144 Copynumber: 1.9 Consensus size: 144
12420 TCTTTAAATT
** * * *
12430 AAAAACCTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGTACGAACTTTCAAACTTGTCAAA
1 AAAAACCTATTTACGTGAGAATCATTACTCTCTTGGTTCTTGGAAGAACTTTCAAACTTGTCAAA
*
12495 CTTTTACGAGTTCATTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGAA
66 CTTTTACGAGTTCATTTATAACTTTGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGAA
12560 CTTTCAAATTTGTC
131 CTTTCAAATTTGTC
*
12574 AAAAACTTATTTA-GATGAGAATCATTACTCTCTTGGTTCTTGGAAGAACTTTCAAACTTGTCAA
1 AAAAACCTATTTACG-TGAGAATCATTACTCTCTTGGTTCTTGGAAGAACTTTCAAACTTGTCAA
* * *
12638 ACTTTTACGAGTTCTTTTATAACTTTGATTCCTTAAAGTATTCTATACGATCCATTCCTTCGAGA
65 ACTTTTACGAGTTCATTTATAACTTTGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGA
12703 A
130 A
12704 ATTTTTCGAA
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
143 1 0.01
144 118 0.99
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (144 bp):
AAAAACCTATTTACGTGAGAATCATTACTCTCTTGGTTCTTGGAAGAACTTTCAAACTTGTCAAA
CTTTTACGAGTTCATTTATAACTTTGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGAA
CTTTCAAATTTGTC
Found at i:12876 original size:360 final size:360
Alignment explanation
Indices: 12215--12913 Score: 1062
Period size: 360 Copynumber: 1.9 Consensus size: 360
12205 TCTTTAGATT
** * *
12215 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCAAAATTGTCAAAC
1 AAAACTTATTTACGTGAGAATCATTACTCTCTTGGTTCTTGGAAGAACTTTCAAAATTGTCAAAC
* *
12280 TTTCACGAGTTCTTTTATAACATTGGTTCCTAAAAGTATTCCAGACAATCCATTTCTTCAAGCAA
66 TTTCACGAGTTCTTTTATAACATTGATTCCTAAAAGTATTCCAGACAATCCATTCCTTCAAGCAA
*
12345 ATTTTTGAACATTCCATGCTCGAGAAATCGCATCATTTGGACTAAATAGTTTGTCAATTTGAAAA
131 ATTTTTGAACATTCCATGCTAGAGAAATCGCATCATTTGGACTAAATAGTTTGTCAATTTGAAAA
* * *
12410 CAAGCTTTGGTCTTTAAATTAAAAACCTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGTAC
196 CAAGCTTTGGCCTTTAAATTAAAAACCTATTTACGTGAGAATTGTTTCTCTCTTGGTTCATGAAC
*
12475 GAACTTTCAAACTTGTCAAACTTTTACGAGTTCATTTATAACTTTGGTTCCTTAAAGTATTCAAG
261 GAACTTTCAAACTTGTCAAACTTTTACGAGTTCATTTATAACTTCGGTTCCTTAAAGTATTCAAG
12540 ACGATCCATTCCTTCGAGAACTTTCAAATTTGTCA
326 ACGATCCATTCCTTCGAGAACTTTCAAATTTGTCA
*
12575 AAAACTTATTTA-GATGAGAATCATTACTCTCTTGGTTCTTGGAAGAACTTTCAAACTTGTCAAA
1 AAAACTTATTTACG-TGAGAATCATTACTCTCTTGGTTCTTGGAAGAACTTTCAAAATTGTCAAA
* * * * * * *
12639 CTTTTACGAGTTCTTTTATAACTTTGATTCCTTAAAGTATTCTATACGATCCATTCCTTCGAG-A
65 CTTTCACGAGTTCTTTTATAACATTGATTCCTAAAAGTATTCCAGACAATCCATTCCTTCAAGCA
* ** * * *
12703 AATTTTTCGAACATTTCATGCTTAG-GAAATCGCATCATTTGTTCTAAATGGTTTGTCATTTTGT
130 AATTTTT-GAACATTCCATGC-TAGAGAAATCGCATCATTTGGACTAAATAGTTTGTCAATTTGA
* * * *
12767 AAACAAGTTTTGGCCTTTGAATTAAAAACTTATTTACGTGAGAATTTTTTCTCTCTTGGTTCATG
193 AAACAAGCTTTGGCCTTTAAATTAAAAACCTATTTACGTGAGAATTGTTTCTCTCTTGGTTCATG
* * *
12832 AACGAACTTTCGAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTC
258 AACGAACTTTCAAACTTGTCAAACTTTTACGAGTTCATTTATAACTTCGGTTCCTTAAAGTATTC
12897 AAGACGATCCATTCCTT
323 AAGACGATCCATTCCTT
12914 TGAGCAATTT
Statistics
Matches: 304, Mismatches: 32, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
359 9 0.03
360 293 0.96
361 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.40
Consensus pattern (360 bp):
AAAACTTATTTACGTGAGAATCATTACTCTCTTGGTTCTTGGAAGAACTTTCAAAATTGTCAAAC
TTTCACGAGTTCTTTTATAACATTGATTCCTAAAAGTATTCCAGACAATCCATTCCTTCAAGCAA
ATTTTTGAACATTCCATGCTAGAGAAATCGCATCATTTGGACTAAATAGTTTGTCAATTTGAAAA
CAAGCTTTGGCCTTTAAATTAAAAACCTATTTACGTGAGAATTGTTTCTCTCTTGGTTCATGAAC
GAACTTTCAAACTTGTCAAACTTTTACGAGTTCATTTATAACTTCGGTTCCTTAAAGTATTCAAG
ACGATCCATTCCTTCGAGAACTTTCAAATTTGTCA
Found at i:12949 original size:216 final size:216
Alignment explanation
Indices: 12574--13815 Score: 1675
Period size: 216 Copynumber: 5.8 Consensus size: 216
12564 CAAATTTGTC
* * * *
12574 AAAAACTTATTTA-GATGAGAATCATTACTCTCTTGGTTCTTGGAAGAACTTTCAAACTTGTCAA
1 AAAAACTTATTTACG-TGAGAATTATTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAA
* * * *
12638 ACTTTTACGAGTTCTTTTATAACTTTGATTCCTTAAAGTATTCTATACGATCCATTCCTTCGAGA
65 ACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC
* * * * *
12703 AATTTTTCGAACATTTCATGCTTAGGAAATCGCATCATTTGTTCTAAATGGTTTGTCATTTTGTA
130 AATTTTACGAACATTCCATGCTTGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
12768 AACAAGTTTTGGCCTTTGAATT
195 AACAAGTTTTGGCCTTTGAATT
* * *
12790 AAAAACTTATTTACGTGAGAATTTTTTCTCTCTTGGTTCATGAACGAACTTTCGAACTTGTCAAA
1 AAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAA
* * *
12855 CTTTTATGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTTGAGCA
66 CTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
* * * *
12920 ATTTTACGAACGTTCCATGCTTGGGAAATCGCATGATTTGGTCTAAATAGTTTGTGATTTTTTAA
131 ATTTTACGAACATTCCATGCTTGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
* * * *
12985 ATAAGTCTAGGTCTTTGAATT
196 ACAAGTTTTGGCCTTTGAATT
* * * * *
13006 AAAATCTTATTTACGTGAGAATTGTTTCACTCTTGGTTCTTGGACGAACTTCCGTACTTGTTC-A
1 AAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTG-TCAA
* * * * *
13070 GCTTTTACGAGTTCTTTTATAACTTCAATTCCTTAAAATATTCAAGACGATGCATTCCATCGAGC
65 ACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC
* * * * *
13135 AATTTT-CTAAACATTCCATGCTTGGGAAGTCGCATCATTTGGTCTCAATAATTTGTCATTTTTT
130 AATTTTAC-GAACATTCCATGCTTGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT
13199 AAACAAGTTTTGGCCTTTGAATT
194 AAACAAGTTTTGGCCTTTGAATT
* *
13222 ATAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTTGGACGAACTTTTGAACTTGTCAAA
1 AAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAA
* * * *
13287 CTGTTACAAGTTCTTTTATAACTTTCG-TTCCTTAAAGTATTCTAGACGATCAATTCCTTCGAG-
66 CTTTTACGAGTTCTTTTATAAC-TTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC
* * * * *
13350 ATATTTTCCGAACATTCCATGGTCGGGAAATCGTATCATTTGGTCTAAATGGTTTGTCATTTTGT
130 A-ATTTTACGAACATTCCATGCTTGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT
*
13415 AAACAAGTTTTGGCATTTGAATT
194 AAACAAGTTTTGGCCTTTGAATT
* *
13438 AAAAACTTATTTACGTGAGAATTTTTTCTCTCTTGGTTCATGGACGAACTTTCGAACTTGTCAAA
1 AAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAA
* * * * *
13503 CTTTTATGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGATGATCCATTCCTTCAATCA
66 CTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
* ** * *
13568 ATTTTATGAACATTCCATGCTCAGAAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
131 ATTTTACGAACATTCCATGCTTGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
* * * *
13633 ATATGTTTAGGTCTTTGAATT
196 ACAAGTTTTGGCCTTTGAATT
* * * *
13654 AAAATCTTATTTACGTAAGAATTGTTTCACTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAA
1 AAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAA
* * * *
13719 CTTTTATGAGTTCTTTTATAACTTTGATTCCTTAAAGTATTCAAGACGATCCATTCCATCAAGCA
66 CTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
* * *
13784 ATTTTCCAAACATTCCATGCTTGAGAAATCGC
131 ATTTTACGAACATTCCATGCTTGGGAAATCGC
13816 TTGTTTAATT
Statistics
Matches: 895, Mismatches: 122, Indels: 18
0.86 0.12 0.02
Matches are distributed among these distances:
215 8 0.01
216 879 0.98
217 8 0.01
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (216 bp):
AAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAA
CTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
ATTTTACGAACATTCCATGCTTGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
ACAAGTTTTGGCCTTTGAATT
Found at i:17379 original size:12 final size:12
Alignment explanation
Indices: 17306--17379 Score: 53
Period size: 12 Copynumber: 6.1 Consensus size: 12
17296 AATGCTGAAA
*
17306 GATAAAAGATAAT
1 GATAAAATA-AAT
*
17319 GA-AAAGTAAAT
1 GATAAAATAAAT
*
17330 GATAAAATAAAG
1 GATAAAATAAAT
* *
17342 GATAAACTAAGTAC
1 GATAAAATAA--AT
17356 GA-AAAATAAAT
1 GATAAAATAAAT
*
17367 GATAAACTAAAT
1 GATAAAATAAAT
17379 G
1 G
17380 TAGGAAATTG
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
11 8 0.17
12 29 0.60
13 8 0.17
14 3 0.06
ACGTcount: A:0.61, C:0.04, G:0.15, T:0.20
Consensus pattern (12 bp):
GATAAAATAAAT
Found at i:22177 original size:50 final size:50
Alignment explanation
Indices: 22060--22163 Score: 208
Period size: 50 Copynumber: 2.1 Consensus size: 50
22050 ACTGCTAAAA
22060 GAAAACCAAACTCAGAAAGTCCATTAAAAAATGTAGAAAAGCATTTTGAC
1 GAAAACCAAACTCAGAAAGTCCATTAAAAAATGTAGAAAAGCATTTTGAC
22110 GAAAACCAAACTCAGAAAGTCCATTAAAAAATGTAGAAAAGCATTTTGAC
1 GAAAACCAAACTCAGAAAGTCCATTAAAAAATGTAGAAAAGCATTTTGAC
22160 GAAA
1 GAAA
22164 CTAATATGCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.51, C:0.15, G:0.14, T:0.19
Consensus pattern (50 bp):
GAAAACCAAACTCAGAAAGTCCATTAAAAAATGTAGAAAAGCATTTTGAC
Found at i:28494 original size:13 final size:12
Alignment explanation
Indices: 28476--28508 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
28466 TTTAGATCCA
28476 AAAATTATTTTTT
1 AAAATT-TTTTTT
28489 AAAA-TTTTTTT
1 AAAATTTTTTTT
28500 AAAATTTTT
1 AAAATTTTT
28509 AACTTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.53
12 5 0.26
13 4 0.21
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
AAAATTTTTTTT
Found at i:28499 original size:11 final size:11
Alignment explanation
Indices: 28483--28508 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
28473 CCAAAAATTA
28483 TTTTTTAAAAT
1 TTTTTTAAAAT
28494 TTTTTTAAAAT
1 TTTTTTAAAAT
28505 TTTT
1 TTTT
28509 AACTTTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTTTAAAAT
Found at i:28638 original size:20 final size:20
Alignment explanation
Indices: 28556--28640 Score: 61
Period size: 20 Copynumber: 4.2 Consensus size: 20
28546 AATTATAATT
28556 TTTTTGAAAATATAAATTTTGTA
1 TTTTTGAAAAT-T--ATTTTGTA
**
28579 TTTTTTTTAAA-TATTTTG-A
1 -TTTTTGAAAATTATTTTGTA
* * *
28598 ATTTT-AAAGTTA-TTTGAA
1 TTTTTGAAAATTATTTTGTA
28616 TTTTTGAAAATTATTTTGTA
1 TTTTTGAAAATTATTTTGTA
28636 TTTTT
1 TTTTT
28641 TTGTTGAGAG
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
17 6 0.12
18 11 0.22
19 7 0.14
20 16 0.33
22 1 0.02
24 8 0.16
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (20 bp):
TTTTTGAAAATTATTTTGTA
Found at i:28639 original size:19 final size:18
Alignment explanation
Indices: 28590--28639 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
28580 TTTTTTTAAA
*
28590 TATTTTGAATTTTAAAGT
1 TATTTTGAATTTTAAAAT
28608 TA-TTTGAATTTTTGAAAAT
1 TATTTTGAA-TTTT-AAAAT
*
28627 TATTTTGTATTTT
1 TATTTTGAATTTT
28640 TTTGTTGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 6 0.22
18 6 0.22
19 10 0.37
20 5 0.19
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (18 bp):
TATTTTGAATTTTAAAAT
Found at i:28701 original size:9 final size:9
Alignment explanation
Indices: 28687--28716 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
28677 ACACCAATTT
28687 ATTATTCAA
1 ATTATTCAA
28696 ATTATTCAA
1 ATTATTCAA
*
28705 ATTATTCGA
1 ATTATTCAA
28714 ATT
1 ATT
28717 GTAAAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (9 bp):
ATTATTCAA
Found at i:33288 original size:15 final size:14
Alignment explanation
Indices: 33243--33281 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
33233 CTAGAAAAGT
*
33243 AAATAATTTTCCAA
1 AAATTATTTTCCAA
33257 AAATTATTTTCCAA
1 AAATTATTTTCCAA
33271 AAATTATTTTC
1 AAATTATTTTC
33282 AGTAAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATTATTTTCCAA
Found at i:34627 original size:18 final size:19
Alignment explanation
Indices: 34601--34649 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
34591 TTAAAACTAC
*
34601 TTCTTGTTTAGATT-AGAG
1 TTCTAGTTTAGATTAAGAG
34619 TTCTAGTTTA-ATTAAGAG
1 TTCTAGTTTAGATTAAGAG
*
34637 TTTTA-TTTAGATT
1 TTCTAGTTTAGATT
34650 TATTTAGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 7 0.26
18 20 0.74
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.53
Consensus pattern (19 bp):
TTCTAGTTTAGATTAAGAG
Found at i:35537 original size:18 final size:19
Alignment explanation
Indices: 35505--35540 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35495 TAATAAAGTA
35505 GAGAAAAAAAGAAAAATAT
1 GAGAAAAAAAGAAAAATAT
*
35524 GAGAAAAATA-AAAAATA
1 GAGAAAAAAAGAAAAATA
35541 AAAAAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (19 bp):
GAGAAAAAAAGAAAAATAT
Found at i:37179 original size:24 final size:24
Alignment explanation
Indices: 37152--37207 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
37142 GAAGAGTTCT
*
37152 CAAGAGGAAAAAGAAAATGAAAAA
1 CAAGAAGAAAAAGAAAATGAAAAA
*
37176 CAAGAAGAAAATGAAAATGAAAAA
1 CAAGAAGAAAAAGAAAATGAAAAA
37200 CAAGAAGA
1 CAAGAAGA
37208 TACCCATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.70, C:0.05, G:0.20, T:0.05
Consensus pattern (24 bp):
CAAGAAGAAAAAGAAAATGAAAAA
Found at i:42256 original size:77 final size:77
Alignment explanation
Indices: 42124--42347 Score: 403
Period size: 77 Copynumber: 2.9 Consensus size: 77
42114 TTTTGACTCT
* *
42124 AAATGTATCCAAACAATGCCTTAGGTCATCCCTAAACATCTCAATGTACACAAATGTCAATTTAA
1 AAAT-TATCCAAACAATGCCTTAGGTCATCCCTAAACATCTCAATATGCACAAATGTCAATTTAA
42189 TCACATAATCCCA
65 TCACATAATCCCA
*
42202 AAATTATCCAAACAATGCTTTAGGTCATCCCTAAACATCTCAATATGCACAAATGTCAATTTAAT
1 AAATTATCCAAACAATGCCTTAGGTCATCCCTAAACATCTCAATATGCACAAATGTCAATTTAAT
*
42267 CACATAATTCCA
66 CACATAATCCCA
42279 AAATTATCCAAACAATGCCTTAGGTCATCCCTAAACATCTCAATATGCACAAATGTCAATTTAAT
1 AAATTATCCAAACAATGCCTTAGGTCATCCCTAAACATCTCAATATGCACAAATGTCAATTTAAT
42344 CACA
66 CACA
42348 AATGATATTA
Statistics
Matches: 141, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
77 137 0.97
78 4 0.03
ACGTcount: A:0.40, C:0.25, G:0.07, T:0.28
Consensus pattern (77 bp):
AAATTATCCAAACAATGCCTTAGGTCATCCCTAAACATCTCAATATGCACAAATGTCAATTTAAT
CACATAATCCCA
Found at i:46503 original size:21 final size:21
Alignment explanation
Indices: 46466--46505 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
46456 AAAACCGAGT
46466 AATAGCTTAATAAATTAATGG
1 AATAGCTTAATAAATTAATGG
*
46487 AATATGCTTAA-ATATTAAT
1 AATA-GCTTAATAAATTAAT
46506 TTAAGACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (21 bp):
AATAGCTTAATAAATTAATGG
Found at i:47138 original size:7 final size:7
Alignment explanation
Indices: 47126--47150 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
47116 CTTTCAAATA
47126 ATCCATC
1 ATCCATC
47133 ATCCATC
1 ATCCATC
47140 ATCCATC
1 ATCCATC
47147 ATCC
1 ATCC
47151 CTCAACATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.44, G:0.00, T:0.28
Consensus pattern (7 bp):
ATCCATC
Found at i:53201 original size:13 final size:13
Alignment explanation
Indices: 53183--53215 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
53173 TATTTCCCAC
*
53183 AAAAAAAGT-GAT
1 AAAAAAAGTAGAG
53195 AAAAAAAGTAGAG
1 AAAAAAAGTAGAG
53208 AAAAAAAG
1 AAAAAAAG
53216 AAAAATACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (13 bp):
AAAAAAAGTAGAG
Found at i:53227 original size:19 final size:19
Alignment explanation
Indices: 53193--53241 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
53183 AAAAAAAGTG
53193 ATAAAAAAAGTA-GAGAAAA
1 ATAAAAAAA-TACGAGAAAA
53212 A-AAGAAAAATACGAGAAAA
1 ATAA-AAAAATACGAGAAAA
53231 ATAAAAAAATA
1 ATAAAAAAATA
53242 TTCCGTGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.15
19 21 0.78
20 2 0.07
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (19 bp):
ATAAAAAAATACGAGAAAA
Found at i:61539 original size:105 final size:105
Alignment explanation
Indices: 61356--61559 Score: 318
Period size: 105 Copynumber: 1.9 Consensus size: 105
61346 AATAGCCTTT
* * *
61356 TTGATACGAAACGAATGCGGAAGAGGATCGTAAAGTTGTCAAGTCGCGGATCTATCCTAAAGTTC
1 TTGATACGAAACGAAGGCGGAAGAGGATCGTAAAGTTGTCAAGTCGCGGATCTACCCTAAAGCTC
* *
61421 TAGACAAACGTAATCTGAAACGAAAACAAAGAAAGACAGA
66 TAGACAAAAGTAATCTAAAACGAAAACAAAGAAAGACAGA
* * * *
61461 TTGATACGAGACGCAGGCGGAAGAGGATCGTAAAGTTGTCAAGTTGTGGATCTACCCTAAAGCTC
1 TTGATACGAAACGAAGGCGGAAGAGGATCGTAAAGTTGTCAAGTCGCGGATCTACCCTAAAGCTC
*
61526 TAGACAAAAGTAATCTAAAACGAAAATAAAGAAA
66 TAGACAAAAGTAATCTAAAACGAAAACAAAGAAA
61560 ACAAATTAGC
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
105 89 1.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.20
Consensus pattern (105 bp):
TTGATACGAAACGAAGGCGGAAGAGGATCGTAAAGTTGTCAAGTCGCGGATCTACCCTAAAGCTC
TAGACAAAAGTAATCTAAAACGAAAACAAAGAAAGACAGA
Found at i:65619 original size:282 final size:282
Alignment explanation
Indices: 65144--65676 Score: 845
Period size: 282 Copynumber: 1.9 Consensus size: 282
65134 GAGGATCATT
* * * *
65144 AAGTTGTCAAGTCGCGGATCTACCCTAAAGCTTTAGACAAAAGTAATTTGAAACGAAAACAAAAA
1 AAGTTGTCAAGTCGCGGATCTACCCCAAAGCTCTAGACAAAAGAAATCTGAAACGAAAACAAAAA
* *
65209 AAACAGATTAGCTGACAAGAAGAATAATCAAATGAAAATTAAAACACAAGAAAGATGAATGGCTG
66 AAACAGATTAACTGACAAGAAGAATAATCAAACGAAAATTAAAACACAAGAAAGATGAATGGCTG
* * *
65274 ATAAAGGATCCAATAGAGAATGAAATTAGTGTTTCTTGGAAGAAAGAAACTATCCTTGGACCTCA
131 ATAAAGAATCCAATAGAGAATGAAATTAGGGTTTCTTGGAAGAAAGAAACCATCCTTGGACCTCA
*
65339 AGAAGACATCCCAACCAAATCTGGAAAATAAAAACACAAACAGATTCGTTAGAAGTTAATACGAA
196 AGAAAACATCCCAACCAAATCTGGAAAATAAAAACACAAACAGATTCGTTAGAAGTTAATACGAA
65404 ACAAAAGCAGAAGAGGATTGTG
261 ACAAAAGCAGAAGAGGATTGTG
*
65426 AAGTTGTCAAGTCGCGGATCTACCCCAAAGCTCTAGACAAATGAAATCTGAAACGAAAACAAAGA
1 AAGTTGTCAAGTCGCGGATCTACCCCAAAGCTCTAGACAAAAGAAATCTGAAACGAAAACAAA-A
* * *
65491 AAGACAGATTAATTGACAAGAAGAATAATCAAACG-AAATTAAAATTA-AAGAAAGATGAATGGC
65 AAAACAGATTAACTGACAAGAAGAATAATCAAACGAAAATTAAAA-CACAAGAAAGATGAATGGC
* * *
65554 TGATAATGAATCCAATAGAGAATGAAATTAGGGTTTCTTGGATGAAAGAAACCGTCCTTGGACCT
129 TGATAAAGAATCCAATAGAGAATGAAATTAGGGTTTCTTGGAAGAAAGAAACCATCCTTGGACCT
* * * *
65619 CAAGAAAACGTCCCTACTAGATCTGGAAAATAAAAACACAAACAGATTCGTTAGAAGT
194 CAAGAAAACATCCCAACCAAATCTGGAAAATAAAAACACAAACAGATTCGTTAGAAGT
65677 GATTTAAAAG
Statistics
Matches: 228, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
282 195 0.86
283 33 0.14
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.20
Consensus pattern (282 bp):
AAGTTGTCAAGTCGCGGATCTACCCCAAAGCTCTAGACAAAAGAAATCTGAAACGAAAACAAAAA
AAACAGATTAACTGACAAGAAGAATAATCAAACGAAAATTAAAACACAAGAAAGATGAATGGCTG
ATAAAGAATCCAATAGAGAATGAAATTAGGGTTTCTTGGAAGAAAGAAACCATCCTTGGACCTCA
AGAAAACATCCCAACCAAATCTGGAAAATAAAAACACAAACAGATTCGTTAGAAGTTAATACGAA
ACAAAAGCAGAAGAGGATTGTG
Found at i:68277 original size:22 final size:22
Alignment explanation
Indices: 68252--68295 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
68242 TAGTCCTCCT
68252 TTTACTCGAAAATTACTCTTTG
1 TTTACTCGAAAATTACTCTTTG
*
68274 TTTACTCGAAAATTGCTCTTTG
1 TTTACTCGAAAATTACTCTTTG
68296 CGCATATGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.18, G:0.11, T:0.45
Consensus pattern (22 bp):
TTTACTCGAAAATTACTCTTTG
Found at i:76247 original size:19 final size:19
Alignment explanation
Indices: 76225--76262 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
76215 ATCAAAAAGT
76225 CGAGAAAA-AAAGAAAAATA
1 CGAGAAAATAAA-AAAAATA
76244 CGAGAAAATAAAAAAAATA
1 CGAGAAAATAAAAAAAATA
76263 AAAAATATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.74, C:0.05, G:0.13, T:0.08
Consensus pattern (19 bp):
CGAGAAAATAAAAAAAATA
Done.